General information for g9852.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g9852 is located on chr_1: 5601455..5602507 (- strand)
Gene structure
- The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.
| Chromosome | Gene | Transcript | Category | ID | Start | End |
|---|---|---|---|---|---|---|
| chr_1 | g9852 | g9852.t4 | TTS | g9852.t4 | 5601361 | 5601361 |
| chr_1 | g9852 | g9852.t4 | isoform | g9852.t4 | 5601455 | 5602507 |
| chr_1 | g9852 | g9852.t4 | exon | g9852.t4.exon1 | 5601455 | 5601829 |
| chr_1 | g9852 | g9852.t4 | cds | g9852.t4.CDS1 | 5601795 | 5601829 |
| chr_1 | g9852 | g9852.t4 | exon | g9852.t4.exon2 | 5601887 | 5602292 |
| chr_1 | g9852 | g9852.t4 | cds | g9852.t4.CDS2 | 5601887 | 5602292 |
| chr_1 | g9852 | g9852.t4 | exon | g9852.t4.exon3 | 5602358 | 5602507 |
| chr_1 | g9852 | g9852.t4 | cds | g9852.t4.CDS3 | 5602358 | 5602507 |
| chr_1 | g9852 | g9852.t4 | TSS | g9852.t4 | 5602538 | 5602538 |
Sequences
>g9852.t4 Gene=g9852 Length=931
ATGTTTGAACAGAAAAACTCGGTAATAAATCTCGCAGACTGCGTAGAATCAAACTGCCGA
ATGTGCTTAAAAAGATTTGAAGAATATGATTTGAAGTTGCAAATTACAGAGAATATTAAG
AACAATTTTGAAAAATTGGTCAATATTGAGCTTAAACTTTCAACAAGGTATCCACAGTAC
ATTTGTATAACTTGTCATAATAAATTGGCTAGATTCGCAAATTATCGTCAAGATATTATA
CAAAAGCAAGATCTTATTTCAATTTTCAATGGACAAAGAATTTTGGTCGATTCAAGCACT
CCGAATGCAGTAATAGCAAAAGTTCTAGGAAATAACAAGGAACAAGTGAATCCAGAGATT
AAATTTTTGATTCCAGATCAAGAAATGTACGAAATTGATGAAGATCGTTATCAAGATAAT
TACTATCAAATGCAAGATCCAACGACATCAAAAATGAGTAATGCAAATAAGAAAGATGAA
GACATACCATTCAAATGTGAGTTTTGCTTTAAAGAATTTAAGCGTCAACGAACACTCAAT
GAACATCGTGATGTAAAAAATACATTACAATCAAATCAATTATTTCTGTGATAATTGTGG
CTATGGTGCTTTTAAAAAATATGATCTAAAACGTCATATGCGAACTCACATCTCTAAAGA
ATTTCGTAAAACCTATGAATGCAACATTTGTCATATTAAATTGTTGAGTCCTGAAGGATT
GAAACGACACATTAAAAATATACATTCAACTACTGAAAATTATCACTGCAATTATTGCTA
TGAAAATTTTTTCCGGGTTGTGGATTTCAATTCGCATATGGATAGTGTTCACGGTACCAA
GACTTTATTTGCTTGCAATTTGTGTAATGATTTCTATGGCACCAGATACAGCTTGAGAAA
GCATAAGAAGGACTGTAAACAAAAAATTTAA
>g9852.t4 Gene=g9852 Length=196
MFEQKNSVINLADCVESNCRMCLKRFEEYDLKLQITENIKNNFEKLVNIELKLSTRYPQY
ICITCHNKLARFANYRQDIIQKQDLISIFNGQRILVDSSTPNAVIAKVLGNNKEQVNPEI
KFLIPDQEMYEIDEDRYQDNYYQMQDPTTSKMSNANKKDEDIPFKCEFCFKEFKRQRTLN
EHRDVKNTLQSNQLFL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g9852.t4 | Gene3D | G3DSA:3.40.1800.20 | - | 17 | 88 | 0.0000001 |
| 1 | g9852.t4 | Pfam | PF07776 | Zinc-finger associated domain (zf-AD) | 19 | 86 | 0.0000000 |
| 5 | g9852.t4 | ProSiteProfiles | PS50157 | Zinc finger C2H2 type domain profile. | 164 | 192 | 8.7250000 |
| 3 | g9852.t4 | SMART | SM00868 | zf_AD_2 | 18 | 89 | 0.0065000 |
| 2 | g9852.t4 | SUPERFAMILY | SSF57716 | Glucocorticoid receptor-like (DNA-binding domain) | 19 | 85 | 0.0000004 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005634 | nucleus | CC |
| GO:0008270 | zinc ion binding | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
Expression
Transcript expression in Pv11 cells
TPM values are indicated as average +/- STDEV. 
Differential expression
Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed